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Marzia Cremona: Functional data analysis testing and linear modeling for high-resolution “omics” data

07/07/2017 @ 09:10-09:40 Retreat Research Talk by Marzia Cremona Functional data analysis testing and linear modeling for high-resolution “omics” data 1. Campos-Sánchez, R., Cremona, M.A., Pini, A., Chiaromonte, F. and Makova, K.D., 2016. Integration and fixation preferences of human and mouse endogenous retroviruses uncovered with functional data analysis. PLoS Comput Biol, 12(6), p.e1004956. 2. Cremona,…

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David Koslicki: Improving Min Hash for Metagenomic Classification

07/07/2017 @ 09:40-10:10 Retreat Research Talk by David Koslicki Improving Min Hash for Metagenomic Classification 1. Broder, A.Z., 1997, June. On the resemblance and containment of documents. In Compression and Complexity of Sequences 1997. Proceedings (pp. 21-29). IEEE. 2. Ondov, B.D., Treangen, T.J., Melsted, P., Mallonee, A.B., Bergman, N.H., Koren, S. and Phillippy, A.M., 2016….

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Anil Ori: Integration of longitudinal gene expression with polygenic disease risk establishes human neuronal differentiation as a model to study schizophrenia

07/07/2017 @ 13:10-13:40 Retreat Research Talk by Anil Ori Integration of longitudinal gene expression with polygenic disease risk establishes human neuronal differentiation as a model to study schizophrenia 1. Tai, Y.C. and Speed, T.P., 2006. A multivariate empirical Bayes statistic for replicated microarray time course data. The Annals of Statistics, 34(5), pp.2387-2412. 2. Aryee, M.J.,…

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YoSon Park: Large, diverse population cohorts of hiPSCs and derived hepatocyte-like cells reveal functional genetic variation at blood lipid-associated loci

07/07/2017 @ 14:00-14:30 Retreat Research Talk by YoSon Park Large, diverse population cohorts of hiPSCs and derived hepatocyte-like cells reveal functional genetic variation at blood lipid-associated loci 1. Pashos, E.E., Park, Y., Wang, X., Raghavan, A., Yang, W., Abbey, D., Peters, D.T., Arbelaez, J., Hernandez, M., Kuperwasser, N. and Li, W., 2017. Large, Diverse Population…

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Nikita Alexeev: Estimation of the rate of transpositions and the true evolutionary distance

07/07/2017 @ 14:30-15:00 Retreat Research Talk by Nikita Alexeev Estimation of the rate of transpositions and the true evolutionary distance 1. Alexeev, N. and Alekseyev, M.A., 2017. Estimation of the true evolutionary distance under the fragile breakage model. BMC Genomics, 18(4), p.356. 2. Alexeev, N., Aidagulov, R. and Alekseyev, M.A., 2015. A computational method for…

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Loes Olde Loohuis: Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia

07/07/2017 @ 15:00-15:30 Retreat Research Talk by Loes Olde Loohuis Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia 1. Mangul, S., Loohuis, L.M.O., Ori, A., Jospin, G., Koslicki, D., Yang, H.T., Wu, T., Boks, M.P., Lomen-Hoerth, C., Wiedau-Pazos, M. and Cantor, R., 2016. Total RNA Sequencing reveals microbial communities in human blood…

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Andy Dahl: Adjusting for principal components of molecular phenotypes induces replicating false positives

07/06/2017 @ 13:10-13:40 Retreat Research Talk by Andy Dahl Adjusting for principal components of molecular phenotypes induces replicating false positives 1. Dahl, A., Guillemot, V., Mefford, J., Aschard, H. and Zaitlen, N., 2017. Adjusting For Principal Components Of Molecular Phenotypes Induces Replicating False Positives. bioRxiv, p.120899. 2. Leek, J.T. and Storey, J.D., 2007. Capturing heterogeneity…

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Ilan Gronau: Population phylogenomics: A genealogical perspective

07/06/2017 @ 14:10-14:40 Retreat Research Talk by Ilan Gronau Population phylogenomics: A genealogical perspective 1. Gronau, I., Hubisz, M.J., Gulko, B., Danko, C.G. and Siepel, A., 2011. Bayesian inference of ancient human demography from individual genome sequences. Nature genetics, 43(10), pp.1031-1034. 2. Rasmussen, M.D., Hubisz, M.J., Gronau, I. and Siepel, A., 2014. Genome-wide inference of…

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Na Cai: Heterogeneity in depression

We apologize that this video is currently unavailable. 07/06/2017 @ 14:40-15:10 Retreat Research Talk by Na Cai Heterogeneity in depression 1. Cai, N., Bigdeli, T.B., Kretzschmar, W.W., Li, Y., Liang, J., Hu, J., Peterson, R.E., Bacanu, S., Webb, B.T., Riley, B. and Li, Q., 2017. 11,670 whole-genome sequences representative of the Han Chinese population from…

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